Multiple sequence alignment - TraesCS7B01G087300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G087300 chr7B 100.000 4493 0 0 1 4493 102226103 102230595 0.000000e+00 8298.0
1 TraesCS7B01G087300 chr7A 93.854 2473 94 27 2050 4493 137764668 137767111 0.000000e+00 3672.0
2 TraesCS7B01G087300 chr7A 93.850 1496 62 14 491 1980 137763198 137764669 0.000000e+00 2226.0
3 TraesCS7B01G087300 chr7A 84.211 95 10 3 1979 2071 561594659 561594568 2.230000e-13 87.9
4 TraesCS7B01G087300 chr7D 93.016 2477 97 29 2064 4493 137556476 137558923 0.000000e+00 3546.0
5 TraesCS7B01G087300 chr7D 92.108 2002 95 30 1 1983 137554476 137556433 0.000000e+00 2763.0
6 TraesCS7B01G087300 chr7D 82.353 85 7 6 1578 1661 589517788 589517865 2.900000e-07 67.6
7 TraesCS7B01G087300 chr7D 90.196 51 0 4 1612 1661 629074203 629074249 1.350000e-05 62.1
8 TraesCS7B01G087300 chr7D 84.746 59 3 2 1977 2035 35050790 35050738 2.000000e-03 54.7
9 TraesCS7B01G087300 chr1D 91.753 97 3 3 1979 2070 154021221 154021317 3.650000e-26 130.0
10 TraesCS7B01G087300 chr1A 91.753 97 3 3 1979 2070 206793778 206793682 3.650000e-26 130.0
11 TraesCS7B01G087300 chr3D 87.640 89 5 2 1982 2070 524715711 524715629 1.030000e-16 99.0
12 TraesCS7B01G087300 chr3D 85.263 95 6 6 1979 2071 81859701 81859789 1.720000e-14 91.6
13 TraesCS7B01G087300 chr3D 83.750 80 7 2 1990 2069 460420175 460420102 2.240000e-08 71.3
14 TraesCS7B01G087300 chr3D 83.117 77 7 4 1585 1661 114316340 114316410 1.040000e-06 65.8
15 TraesCS7B01G087300 chr3D 81.818 77 8 4 1585 1661 49618127 49618197 4.850000e-05 60.2
16 TraesCS7B01G087300 chr1B 86.813 91 7 3 1979 2064 242241177 242241087 3.700000e-16 97.1
17 TraesCS7B01G087300 chr1B 98.000 50 1 0 2021 2070 223800072 223800121 2.230000e-13 87.9
18 TraesCS7B01G087300 chr1B 82.143 84 9 4 1578 1661 534167871 534167794 2.900000e-07 67.6
19 TraesCS7B01G087300 chr6A 100.000 28 0 0 1975 2002 37390048 37390021 8.000000e-03 52.8
20 TraesCS7B01G087300 chr4A 100.000 27 0 0 1985 2011 690220572 690220598 2.900000e-02 51.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G087300 chr7B 102226103 102230595 4492 False 8298.0 8298 100.000 1 4493 1 chr7B.!!$F1 4492
1 TraesCS7B01G087300 chr7A 137763198 137767111 3913 False 2949.0 3672 93.852 491 4493 2 chr7A.!!$F1 4002
2 TraesCS7B01G087300 chr7D 137554476 137558923 4447 False 3154.5 3546 92.562 1 4493 2 chr7D.!!$F3 4492

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
231 232 0.116342 TGCCTCCAGTGGGTCTTCTA 59.884 55.000 9.92 0.00 34.93 2.10 F
668 685 0.387202 CCCACTACAGCTCGAGGATG 59.613 60.000 15.58 6.57 37.36 3.51 F
1610 1631 0.450583 TGCTACTCGTTAGTGCTCCG 59.549 55.000 0.00 0.00 36.36 4.63 F
1790 1811 1.202533 ACTGGGTGTGAAGTTCAGTCG 60.203 52.381 5.62 0.00 34.00 4.18 F
2048 2069 1.822506 TGTACTAGAGCTGCGACAGT 58.177 50.000 0.00 7.89 33.43 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1170 1188 0.748450 TATGTACGCGGAGGAAAGGG 59.252 55.000 12.47 0.0 0.00 3.95 R
1809 1830 1.009829 CGAGCATAAACCAGCCAGAC 58.990 55.000 0.00 0.0 0.00 3.51 R
2760 2802 1.056660 TCACACCTCCTGGAACTTCC 58.943 55.000 0.20 0.2 36.96 3.46 R
3109 3156 1.134098 AACTGAGCATCGGGTAATGGG 60.134 52.381 0.00 0.0 41.80 4.00 R
3658 3706 2.329614 CCCCCGCTGTAACCAAACG 61.330 63.158 0.00 0.0 0.00 3.60 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
31 32 1.154413 CATGGCTTTGCACGACGAC 60.154 57.895 0.00 0.00 0.00 4.34
45 46 1.350193 GACGACGAGCACAACATCAT 58.650 50.000 0.00 0.00 0.00 2.45
49 50 1.933853 GACGAGCACAACATCATACCC 59.066 52.381 0.00 0.00 0.00 3.69
66 67 6.210796 TCATACCCGAATCTGTTATACAACG 58.789 40.000 0.00 0.00 37.48 4.10
74 75 2.436542 TCTGTTATACAACGGGATGGGG 59.563 50.000 0.00 0.00 40.81 4.96
75 76 2.171870 CTGTTATACAACGGGATGGGGT 59.828 50.000 0.00 0.00 37.38 4.95
76 77 2.092861 TGTTATACAACGGGATGGGGTG 60.093 50.000 0.00 0.00 37.48 4.61
78 79 0.996583 ATACAACGGGATGGGGTGTT 59.003 50.000 0.00 0.00 0.00 3.32
79 80 1.654159 TACAACGGGATGGGGTGTTA 58.346 50.000 0.00 0.00 0.00 2.41
83 84 2.829120 CAACGGGATGGGGTGTTATTTT 59.171 45.455 0.00 0.00 0.00 1.82
84 85 3.178412 ACGGGATGGGGTGTTATTTTT 57.822 42.857 0.00 0.00 0.00 1.94
101 102 8.468399 TGTTATTTTTCAGGTTTTCTTTACGGT 58.532 29.630 0.00 0.00 0.00 4.83
124 125 6.368213 GTGTATTCAGTTTTGGTTTAGGACG 58.632 40.000 0.00 0.00 0.00 4.79
181 182 7.955750 TCATCCTATTATCATTCTGTGGGTCTA 59.044 37.037 0.00 0.00 0.00 2.59
187 188 4.553330 TCATTCTGTGGGTCTACTTTCC 57.447 45.455 0.00 0.00 0.00 3.13
197 198 0.535335 TCTACTTTCCGCTGGCGAAT 59.465 50.000 16.79 0.00 42.83 3.34
208 209 1.354337 CTGGCGAATGGTGTGTCGAG 61.354 60.000 0.00 0.00 39.64 4.04
230 231 1.152030 TGCCTCCAGTGGGTCTTCT 60.152 57.895 9.92 0.00 34.93 2.85
231 232 0.116342 TGCCTCCAGTGGGTCTTCTA 59.884 55.000 9.92 0.00 34.93 2.10
233 234 1.490574 CCTCCAGTGGGTCTTCTAGG 58.509 60.000 9.92 2.59 34.93 3.02
243 244 1.476471 GGTCTTCTAGGATCCGGTCGA 60.476 57.143 5.98 0.00 0.00 4.20
257 258 3.258872 TCCGGTCGATTTAAGTTTCTGGA 59.741 43.478 0.00 0.00 0.00 3.86
273 274 6.843333 AGTTTCTGGAGATCCATCTAGATTCA 59.157 38.462 1.33 0.00 46.46 2.57
285 286 2.629050 TAGATTCAGCCGGCTCACGC 62.629 60.000 30.29 16.83 42.52 5.34
295 296 3.353836 GCTCACGCGGCCTTCAAA 61.354 61.111 12.47 0.00 0.00 2.69
296 297 2.863153 CTCACGCGGCCTTCAAAG 59.137 61.111 12.47 0.00 0.00 2.77
297 298 1.961277 CTCACGCGGCCTTCAAAGT 60.961 57.895 12.47 0.00 0.00 2.66
367 368 4.434685 GGCTGCCGAGATCTCTTG 57.565 61.111 20.26 12.18 0.00 3.02
377 378 3.181503 CCGAGATCTCTTGGTTTGCATTG 60.182 47.826 20.26 0.24 41.66 2.82
378 379 3.686241 CGAGATCTCTTGGTTTGCATTGA 59.314 43.478 20.26 0.00 0.00 2.57
395 396 1.221466 TGAAGACTTCGCAACCGCTG 61.221 55.000 10.56 0.00 35.30 5.18
418 419 5.650266 TGCTTCTACAAACTCTTTGGTTTCA 59.350 36.000 0.12 0.00 44.81 2.69
444 445 1.006805 CGCTCTATTGAGGCGGAGG 60.007 63.158 6.30 0.00 40.53 4.30
461 462 3.546724 GGAGGCCCTCAAAATAGACTTC 58.453 50.000 13.90 0.00 31.08 3.01
464 465 3.118592 AGGCCCTCAAAATAGACTTCGAG 60.119 47.826 0.00 0.00 0.00 4.04
541 550 1.270839 TGGTCTCAGCCCTTTTCGAAG 60.271 52.381 0.00 0.00 0.00 3.79
542 551 1.443802 GTCTCAGCCCTTTTCGAAGG 58.556 55.000 0.00 0.00 39.68 3.46
615 629 1.070134 ACACACACACAATAGTCGCCT 59.930 47.619 0.00 0.00 0.00 5.52
618 635 1.995484 CACACACAATAGTCGCCTCTG 59.005 52.381 0.00 0.00 0.00 3.35
668 685 0.387202 CCCACTACAGCTCGAGGATG 59.613 60.000 15.58 6.57 37.36 3.51
726 743 1.004891 GAGGAATCCCACTCCCCCT 59.995 63.158 0.00 0.00 32.95 4.79
728 745 0.624795 AGGAATCCCACTCCCCCTTC 60.625 60.000 0.00 0.00 32.95 3.46
739 756 1.852965 CTCCCCCTTCTCTCTCTCTCT 59.147 57.143 0.00 0.00 0.00 3.10
741 758 1.133482 CCCCCTTCTCTCTCTCTCTCC 60.133 61.905 0.00 0.00 0.00 3.71
912 930 1.884067 CGGCAGCTTTTCTTTCCTCCT 60.884 52.381 0.00 0.00 0.00 3.69
976 994 1.573829 TTGTTGGGATCTTGCGTCGC 61.574 55.000 11.10 11.10 0.00 5.19
1014 1032 4.483243 GAGATGGCCGGCGGGAAA 62.483 66.667 29.48 3.34 34.06 3.13
1162 1180 4.500826 GACCTCCCTCCCCCTCCC 62.501 77.778 0.00 0.00 0.00 4.30
1165 1183 4.179599 CTCCCTCCCCCTCCCCTC 62.180 77.778 0.00 0.00 0.00 4.30
1190 1208 1.537562 CCCTTTCCTCCGCGTACATAC 60.538 57.143 4.92 0.00 0.00 2.39
1269 1287 2.363147 GCCCCTCGTGTCCTCTCT 60.363 66.667 0.00 0.00 0.00 3.10
1336 1354 1.319443 TGGATCTGGGAGCCATCCT 59.681 57.895 0.03 0.00 43.58 3.24
1610 1631 0.450583 TGCTACTCGTTAGTGCTCCG 59.549 55.000 0.00 0.00 36.36 4.63
1734 1755 4.504858 CTGTTGGTGTCCTTGGATACTAC 58.495 47.826 14.55 13.01 37.61 2.73
1738 1759 3.272818 TGGTGTCCTTGGATACTACCCTA 59.727 47.826 14.55 0.00 37.61 3.53
1739 1760 3.896272 GGTGTCCTTGGATACTACCCTAG 59.104 52.174 14.55 0.00 37.61 3.02
1758 1779 5.661759 CCCTAGTATTTAGTGGTCCAGTCTT 59.338 44.000 1.28 0.00 0.00 3.01
1784 1805 3.709653 TCTGAACTACTGGGTGTGAAGTT 59.290 43.478 0.00 0.00 32.05 2.66
1790 1811 1.202533 ACTGGGTGTGAAGTTCAGTCG 60.203 52.381 5.62 0.00 34.00 4.18
1803 1824 5.401531 AGTTCAGTCGGTGCTTTTATAGA 57.598 39.130 0.00 0.00 0.00 1.98
1807 1828 2.158943 AGTCGGTGCTTTTATAGAGGCC 60.159 50.000 0.00 0.00 0.00 5.19
1809 1830 2.158957 TCGGTGCTTTTATAGAGGCCAG 60.159 50.000 5.01 0.00 0.00 4.85
1911 1932 4.333649 GGAAGTACCAAAATACTAACGGCC 59.666 45.833 0.00 0.00 34.18 6.13
1938 1959 3.120889 CGGCAGATTAGTTATGATGCACG 60.121 47.826 0.00 0.00 35.40 5.34
1983 2004 6.090493 GGTAATCGAACAAGAAACACTACTCC 59.910 42.308 0.00 0.00 0.00 3.85
1984 2005 3.986277 TCGAACAAGAAACACTACTCCC 58.014 45.455 0.00 0.00 0.00 4.30
1985 2006 3.640029 TCGAACAAGAAACACTACTCCCT 59.360 43.478 0.00 0.00 0.00 4.20
1986 2007 3.988517 CGAACAAGAAACACTACTCCCTC 59.011 47.826 0.00 0.00 0.00 4.30
1988 2009 4.608948 ACAAGAAACACTACTCCCTCTG 57.391 45.455 0.00 0.00 0.00 3.35
1990 2011 4.841246 ACAAGAAACACTACTCCCTCTGAT 59.159 41.667 0.00 0.00 0.00 2.90
1991 2012 5.046950 ACAAGAAACACTACTCCCTCTGATC 60.047 44.000 0.00 0.00 0.00 2.92
1992 2013 4.027437 AGAAACACTACTCCCTCTGATCC 58.973 47.826 0.00 0.00 0.00 3.36
1993 2014 3.474798 AACACTACTCCCTCTGATCCA 57.525 47.619 0.00 0.00 0.00 3.41
1994 2015 3.474798 ACACTACTCCCTCTGATCCAA 57.525 47.619 0.00 0.00 0.00 3.53
1995 2016 3.791320 ACACTACTCCCTCTGATCCAAA 58.209 45.455 0.00 0.00 0.00 3.28
1996 2017 4.366267 ACACTACTCCCTCTGATCCAAAT 58.634 43.478 0.00 0.00 0.00 2.32
1998 2019 5.964477 ACACTACTCCCTCTGATCCAAATTA 59.036 40.000 0.00 0.00 0.00 1.40
1999 2020 6.443849 ACACTACTCCCTCTGATCCAAATTAA 59.556 38.462 0.00 0.00 0.00 1.40
2002 2023 9.225682 ACTACTCCCTCTGATCCAAATTAATTA 57.774 33.333 0.01 0.00 0.00 1.40
2005 2026 7.880195 ACTCCCTCTGATCCAAATTAATTATCG 59.120 37.037 0.01 0.00 0.00 2.92
2006 2027 6.655003 TCCCTCTGATCCAAATTAATTATCGC 59.345 38.462 0.01 0.00 0.00 4.58
2008 2029 7.361542 CCCTCTGATCCAAATTAATTATCGCAG 60.362 40.741 0.01 6.43 0.00 5.18
2009 2030 6.902341 TCTGATCCAAATTAATTATCGCAGC 58.098 36.000 0.01 0.00 0.00 5.25
2011 2032 6.902341 TGATCCAAATTAATTATCGCAGCTC 58.098 36.000 0.01 0.00 0.00 4.09
2012 2033 6.712095 TGATCCAAATTAATTATCGCAGCTCT 59.288 34.615 0.01 0.00 0.00 4.09
2013 2034 7.877612 TGATCCAAATTAATTATCGCAGCTCTA 59.122 33.333 0.01 0.00 0.00 2.43
2014 2035 8.621532 ATCCAAATTAATTATCGCAGCTCTAA 57.378 30.769 0.01 0.00 0.00 2.10
2015 2036 7.861630 TCCAAATTAATTATCGCAGCTCTAAC 58.138 34.615 0.01 0.00 0.00 2.34
2016 2037 7.497579 TCCAAATTAATTATCGCAGCTCTAACA 59.502 33.333 0.01 0.00 0.00 2.41
2018 2039 9.669353 CAAATTAATTATCGCAGCTCTAACATT 57.331 29.630 0.01 0.00 0.00 2.71
2019 2040 9.669353 AAATTAATTATCGCAGCTCTAACATTG 57.331 29.630 0.01 0.00 0.00 2.82
2021 2042 8.880878 TTAATTATCGCAGCTCTAACATTGTA 57.119 30.769 0.00 0.00 0.00 2.41
2022 2043 6.771188 ATTATCGCAGCTCTAACATTGTAC 57.229 37.500 0.00 0.00 0.00 2.90
2023 2044 3.868757 TCGCAGCTCTAACATTGTACT 57.131 42.857 0.00 0.00 0.00 2.73
2024 2045 4.976224 TCGCAGCTCTAACATTGTACTA 57.024 40.909 0.00 0.00 0.00 1.82
2025 2046 5.319140 TCGCAGCTCTAACATTGTACTAA 57.681 39.130 0.00 0.00 0.00 2.24
2026 2047 5.716094 TCGCAGCTCTAACATTGTACTAAA 58.284 37.500 0.00 0.00 0.00 1.85
2027 2048 5.805486 TCGCAGCTCTAACATTGTACTAAAG 59.195 40.000 0.00 0.00 0.00 1.85
2028 2049 5.577164 CGCAGCTCTAACATTGTACTAAAGT 59.423 40.000 0.00 0.00 0.00 2.66
2029 2050 6.090898 CGCAGCTCTAACATTGTACTAAAGTT 59.909 38.462 0.00 0.00 0.00 2.66
2030 2051 7.237173 GCAGCTCTAACATTGTACTAAAGTTG 58.763 38.462 8.14 0.00 0.00 3.16
2031 2052 7.095187 GCAGCTCTAACATTGTACTAAAGTTGT 60.095 37.037 8.14 0.00 0.00 3.32
2032 2053 9.419297 CAGCTCTAACATTGTACTAAAGTTGTA 57.581 33.333 8.14 0.00 0.00 2.41
2033 2054 9.420551 AGCTCTAACATTGTACTAAAGTTGTAC 57.579 33.333 8.14 0.00 40.27 2.90
2034 2055 9.420551 GCTCTAACATTGTACTAAAGTTGTACT 57.579 33.333 8.14 0.00 40.44 2.73
2039 2060 8.983307 ACATTGTACTAAAGTTGTACTAGAGC 57.017 34.615 0.00 0.00 40.44 4.09
2040 2061 8.804204 ACATTGTACTAAAGTTGTACTAGAGCT 58.196 33.333 0.00 0.00 40.44 4.09
2041 2062 9.077674 CATTGTACTAAAGTTGTACTAGAGCTG 57.922 37.037 0.00 0.00 40.44 4.24
2042 2063 6.618811 TGTACTAAAGTTGTACTAGAGCTGC 58.381 40.000 0.00 0.00 40.44 5.25
2043 2064 4.734917 ACTAAAGTTGTACTAGAGCTGCG 58.265 43.478 0.00 0.00 0.00 5.18
2044 2065 3.936372 AAAGTTGTACTAGAGCTGCGA 57.064 42.857 0.00 0.00 0.00 5.10
2045 2066 2.923605 AGTTGTACTAGAGCTGCGAC 57.076 50.000 0.00 0.00 0.00 5.19
2046 2067 2.160205 AGTTGTACTAGAGCTGCGACA 58.840 47.619 0.00 0.00 0.00 4.35
2047 2068 2.162608 AGTTGTACTAGAGCTGCGACAG 59.837 50.000 0.00 2.92 34.12 3.51
2048 2069 1.822506 TGTACTAGAGCTGCGACAGT 58.177 50.000 0.00 7.89 33.43 3.55
2049 2070 2.160205 TGTACTAGAGCTGCGACAGTT 58.840 47.619 0.00 2.85 33.43 3.16
2060 2081 3.375299 GCTGCGACAGTTAATTTGGATCT 59.625 43.478 8.32 0.00 33.43 2.75
2195 2216 7.173907 CCTGCACAGATTAATAATAGGAACTGG 59.826 40.741 0.00 0.00 41.52 4.00
2204 2241 2.478872 ATAGGAACTGGGCTAGCTCA 57.521 50.000 18.27 18.27 41.52 4.26
2249 2287 2.354403 CCACTACCCAGGTTTAAGTCCG 60.354 54.545 0.00 0.00 0.00 4.79
2257 2295 2.811431 CAGGTTTAAGTCCGCATGAACA 59.189 45.455 0.00 0.00 0.00 3.18
2259 2297 4.634004 CAGGTTTAAGTCCGCATGAACATA 59.366 41.667 0.00 0.00 0.00 2.29
2312 2350 5.186215 TCCTCCGACATGTTCATTTAGTGTA 59.814 40.000 0.00 0.00 0.00 2.90
2367 2407 9.911788 ACATGTTCACAATAGAGAAGGAAATAT 57.088 29.630 0.00 0.00 0.00 1.28
2530 2570 4.093743 GCCCTTTTCTTTTCAGGGGAATA 58.906 43.478 5.62 0.00 46.86 1.75
2545 2585 6.157994 TCAGGGGAATAGTATACAGCTTTTGT 59.842 38.462 5.50 0.00 43.96 2.83
2557 2597 3.181493 ACAGCTTTTGTGAGTGCTTCAAG 60.181 43.478 0.00 0.00 38.99 3.02
2599 2639 9.778741 TGTTGATTATTTCAGTCTTGTAGAAGT 57.221 29.630 0.00 0.00 35.27 3.01
2831 2873 5.068460 CCCAAAGTGACAAAAGTGGTATTGA 59.932 40.000 0.00 0.00 0.00 2.57
2920 2962 3.003480 GATCCGAAGGGTTGAACTTCTG 58.997 50.000 0.00 0.00 39.56 3.02
2921 2963 2.372172 ATCCGAAGGGTTGAACTTCTGT 59.628 45.455 0.00 0.00 39.56 3.41
2922 2964 3.181443 ATCCGAAGGGTTGAACTTCTGTT 60.181 43.478 0.00 0.00 39.56 3.16
2923 2965 4.041198 ATCCGAAGGGTTGAACTTCTGTTA 59.959 41.667 0.00 0.00 39.56 2.41
2924 2966 5.280521 ATCCGAAGGGTTGAACTTCTGTTAT 60.281 40.000 0.00 0.00 39.56 1.89
2925 2967 5.283060 CGAAGGGTTGAACTTCTGTTATG 57.717 43.478 0.00 0.00 41.61 1.90
3005 3047 5.453198 CCACCTTTTTGCCATTCTAACAGTT 60.453 40.000 0.00 0.00 0.00 3.16
3061 3108 8.307483 GCACACATTGTATATCTCTAGGTGTAT 58.693 37.037 10.31 0.00 35.43 2.29
3099 3146 2.481185 TCGTAACATTGTTTTCGCCTCC 59.519 45.455 7.45 0.00 0.00 4.30
3109 3156 3.562557 TGTTTTCGCCTCCTTTAGTTGAC 59.437 43.478 0.00 0.00 0.00 3.18
3132 3179 3.535561 CATTACCCGATGCTCAGTTCTT 58.464 45.455 0.00 0.00 0.00 2.52
3188 3235 6.539103 AGTTTATGCTTCCGACTATTTTCTCC 59.461 38.462 0.00 0.00 0.00 3.71
3189 3236 4.762289 ATGCTTCCGACTATTTTCTCCT 57.238 40.909 0.00 0.00 0.00 3.69
3337 3384 5.701290 GGGTAACTATGTGGACAAGCATATC 59.299 44.000 0.00 0.00 0.00 1.63
3863 3920 0.758685 TTTCCCCCAAGTTGCCACTG 60.759 55.000 0.00 0.00 31.60 3.66
3958 4018 3.317993 GGAAGGCAGTTTGTATGTGTGTT 59.682 43.478 0.00 0.00 0.00 3.32
4005 4074 2.908940 GCAGTTGCAGCTGTGGGT 60.909 61.111 28.21 0.00 41.59 4.51
4161 4230 1.583054 GACGCCAGGGATGATAACAC 58.417 55.000 0.00 0.00 0.00 3.32
4168 4237 1.166531 GGGATGATAACACGGCCAGC 61.167 60.000 2.24 0.00 0.00 4.85
4171 4240 1.599542 GATGATAACACGGCCAGCTTC 59.400 52.381 2.24 0.00 0.00 3.86
4182 4251 2.239400 GGCCAGCTTCCTTGTTACTTT 58.761 47.619 0.00 0.00 0.00 2.66
4184 4253 2.608016 GCCAGCTTCCTTGTTACTTTGC 60.608 50.000 0.00 0.00 0.00 3.68
4187 4256 3.057946 CAGCTTCCTTGTTACTTTGCCTC 60.058 47.826 0.00 0.00 0.00 4.70
4238 4311 1.144093 TGTTGAAAGTGGGTAGGGGTG 59.856 52.381 0.00 0.00 0.00 4.61
4278 4351 3.512329 TCTTCAACCACTCCGCAATACTA 59.488 43.478 0.00 0.00 0.00 1.82
4344 4426 1.065418 GTCCATGGAAGTTCGGTGGAT 60.065 52.381 18.20 0.00 40.72 3.41
4385 4467 5.916318 AGACAAAATGCAACATCCAAAGAA 58.084 33.333 0.00 0.00 0.00 2.52
4403 4485 8.303876 TCCAAAGAATAATAAACAAGGAACTGC 58.696 33.333 0.00 0.00 40.86 4.40
4411 4493 1.299541 ACAAGGAACTGCAACTGACG 58.700 50.000 0.00 0.00 40.86 4.35
4427 4509 0.662374 GACGTCTCGTCGCTTTTCCA 60.662 55.000 8.70 0.00 46.56 3.53
4436 4518 0.882927 TCGCTTTTCCACAACCTCCG 60.883 55.000 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.259618 GTATGATGTTGTGCTCGTCGT 58.740 47.619 0.00 0.00 0.00 4.34
31 32 0.930310 CGGGTATGATGTTGTGCTCG 59.070 55.000 0.00 0.00 0.00 5.03
38 39 7.732025 TGTATAACAGATTCGGGTATGATGTT 58.268 34.615 4.81 0.00 34.15 2.71
45 46 4.202141 CCCGTTGTATAACAGATTCGGGTA 60.202 45.833 17.49 0.00 40.91 3.69
49 50 4.447724 CCATCCCGTTGTATAACAGATTCG 59.552 45.833 3.13 0.00 36.58 3.34
66 67 3.450817 CCTGAAAAATAACACCCCATCCC 59.549 47.826 0.00 0.00 0.00 3.85
74 75 8.748582 CCGTAAAGAAAACCTGAAAAATAACAC 58.251 33.333 0.00 0.00 0.00 3.32
75 76 8.468399 ACCGTAAAGAAAACCTGAAAAATAACA 58.532 29.630 0.00 0.00 0.00 2.41
76 77 8.748582 CACCGTAAAGAAAACCTGAAAAATAAC 58.251 33.333 0.00 0.00 0.00 1.89
78 79 7.998580 ACACCGTAAAGAAAACCTGAAAAATA 58.001 30.769 0.00 0.00 0.00 1.40
79 80 6.869695 ACACCGTAAAGAAAACCTGAAAAAT 58.130 32.000 0.00 0.00 0.00 1.82
83 84 6.766944 TGAATACACCGTAAAGAAAACCTGAA 59.233 34.615 0.00 0.00 0.00 3.02
84 85 6.289834 TGAATACACCGTAAAGAAAACCTGA 58.710 36.000 0.00 0.00 0.00 3.86
101 102 5.470777 CCGTCCTAAACCAAAACTGAATACA 59.529 40.000 0.00 0.00 0.00 2.29
133 134 8.798975 ATGAGAAGAACATTATTCCTACCCTA 57.201 34.615 0.00 0.00 0.00 3.53
155 156 6.789457 AGACCCACAGAATGATAATAGGATGA 59.211 38.462 0.00 0.00 39.69 2.92
164 165 5.163447 CGGAAAGTAGACCCACAGAATGATA 60.163 44.000 0.00 0.00 39.69 2.15
166 167 3.056107 CGGAAAGTAGACCCACAGAATGA 60.056 47.826 0.00 0.00 39.69 2.57
168 169 2.354805 GCGGAAAGTAGACCCACAGAAT 60.355 50.000 0.00 0.00 0.00 2.40
172 173 0.320374 CAGCGGAAAGTAGACCCACA 59.680 55.000 0.00 0.00 0.00 4.17
181 182 2.040544 CCATTCGCCAGCGGAAAGT 61.041 57.895 12.71 0.00 40.25 2.66
187 188 3.027170 GACACACCATTCGCCAGCG 62.027 63.158 5.50 5.50 41.35 5.18
197 198 4.961511 GCACGGCTCGACACACCA 62.962 66.667 1.50 0.00 0.00 4.17
218 219 1.683917 CGGATCCTAGAAGACCCACTG 59.316 57.143 10.75 0.00 0.00 3.66
230 231 5.361857 AGAAACTTAAATCGACCGGATCCTA 59.638 40.000 9.46 0.00 33.02 2.94
231 232 4.161754 AGAAACTTAAATCGACCGGATCCT 59.838 41.667 9.46 0.00 33.02 3.24
233 234 4.270325 CCAGAAACTTAAATCGACCGGATC 59.730 45.833 9.46 0.32 33.02 3.36
257 258 2.830923 CCGGCTGAATCTAGATGGATCT 59.169 50.000 5.86 0.00 40.86 2.75
285 286 3.670627 GCATGTAGAAACTTTGAAGGCCG 60.671 47.826 0.00 0.00 0.00 6.13
290 291 6.293735 CGTTAAGGGCATGTAGAAACTTTGAA 60.294 38.462 0.00 0.00 0.00 2.69
291 292 5.180492 CGTTAAGGGCATGTAGAAACTTTGA 59.820 40.000 0.00 0.00 0.00 2.69
292 293 5.180492 TCGTTAAGGGCATGTAGAAACTTTG 59.820 40.000 0.00 0.00 0.00 2.77
293 294 5.180680 GTCGTTAAGGGCATGTAGAAACTTT 59.819 40.000 0.00 0.00 0.00 2.66
294 295 4.694037 GTCGTTAAGGGCATGTAGAAACTT 59.306 41.667 0.00 0.00 0.00 2.66
295 296 4.251268 GTCGTTAAGGGCATGTAGAAACT 58.749 43.478 0.00 0.00 0.00 2.66
296 297 3.998341 TGTCGTTAAGGGCATGTAGAAAC 59.002 43.478 0.00 0.00 0.00 2.78
297 298 3.998341 GTGTCGTTAAGGGCATGTAGAAA 59.002 43.478 5.66 0.00 0.00 2.52
352 353 2.005451 CAAACCAAGAGATCTCGGCAG 58.995 52.381 16.97 9.81 34.09 4.85
353 354 1.945819 GCAAACCAAGAGATCTCGGCA 60.946 52.381 16.97 0.00 34.09 5.69
354 355 0.729690 GCAAACCAAGAGATCTCGGC 59.270 55.000 16.97 9.39 34.09 5.54
357 358 5.413833 TCTTCAATGCAAACCAAGAGATCTC 59.586 40.000 15.29 15.29 0.00 2.75
358 359 5.182760 GTCTTCAATGCAAACCAAGAGATCT 59.817 40.000 0.00 0.00 0.00 2.75
359 360 5.182760 AGTCTTCAATGCAAACCAAGAGATC 59.817 40.000 0.00 0.00 0.00 2.75
365 366 3.795150 GCGAAGTCTTCAATGCAAACCAA 60.795 43.478 12.99 0.00 0.00 3.67
366 367 2.287547 GCGAAGTCTTCAATGCAAACCA 60.288 45.455 12.99 0.00 0.00 3.67
367 368 2.287547 TGCGAAGTCTTCAATGCAAACC 60.288 45.455 12.99 0.00 0.00 3.27
395 396 6.131544 TGAAACCAAAGAGTTTGTAGAAGC 57.868 37.500 0.00 0.00 40.01 3.86
427 428 1.301322 GCCTCCGCCTCAATAGAGC 60.301 63.158 0.00 0.00 40.68 4.09
444 445 3.866327 GTCTCGAAGTCTATTTTGAGGGC 59.134 47.826 3.45 0.00 38.55 5.19
446 447 5.105716 TGAGGTCTCGAAGTCTATTTTGAGG 60.106 44.000 3.45 0.00 38.55 3.86
447 448 5.955488 TGAGGTCTCGAAGTCTATTTTGAG 58.045 41.667 0.00 0.00 39.12 3.02
448 449 5.977489 TGAGGTCTCGAAGTCTATTTTGA 57.023 39.130 0.00 0.00 0.00 2.69
449 450 6.868864 TCTTTGAGGTCTCGAAGTCTATTTTG 59.131 38.462 21.05 1.57 46.36 2.44
453 454 6.783708 AATCTTTGAGGTCTCGAAGTCTAT 57.216 37.500 21.05 9.88 46.36 1.98
461 462 4.697352 ACATCCAAAATCTTTGAGGTCTCG 59.303 41.667 0.69 0.00 0.00 4.04
464 465 7.454260 AAGTACATCCAAAATCTTTGAGGTC 57.546 36.000 0.00 0.00 0.00 3.85
511 520 2.486191 GGGCTGAGACCATATCACAAGG 60.486 54.545 0.00 0.00 0.00 3.61
615 629 2.714991 CGCCTACCTGCTGCTCAGA 61.715 63.158 0.00 0.00 45.72 3.27
618 635 3.958147 TTGCGCCTACCTGCTGCTC 62.958 63.158 4.18 0.00 33.82 4.26
726 743 2.777692 GGAGAGGGAGAGAGAGAGAGAA 59.222 54.545 0.00 0.00 0.00 2.87
728 745 1.421646 GGGAGAGGGAGAGAGAGAGAG 59.578 61.905 0.00 0.00 0.00 3.20
739 756 0.930726 GAGGAAGAGAGGGAGAGGGA 59.069 60.000 0.00 0.00 0.00 4.20
741 758 0.105709 GGGAGGAAGAGAGGGAGAGG 60.106 65.000 0.00 0.00 0.00 3.69
863 880 3.119096 GCGAGGGCAAGAACCGAC 61.119 66.667 0.00 0.00 39.62 4.79
885 902 0.036388 AGAAAAGCTGCCGGATTCGA 60.036 50.000 5.05 0.00 39.00 3.71
912 930 3.154473 CGGGCGGAGGGATTCAGA 61.154 66.667 0.00 0.00 0.00 3.27
1014 1032 0.681564 ACTTCACCTCGATCGGCTCT 60.682 55.000 16.41 0.00 0.00 4.09
1095 1113 2.048127 ACGAACTCCTTGAGCGCC 60.048 61.111 2.29 0.00 32.04 6.53
1162 1180 1.694525 GGAGGAAAGGGAGGGGAGG 60.695 68.421 0.00 0.00 0.00 4.30
1163 1181 2.066999 CGGAGGAAAGGGAGGGGAG 61.067 68.421 0.00 0.00 0.00 4.30
1164 1182 2.040606 CGGAGGAAAGGGAGGGGA 59.959 66.667 0.00 0.00 0.00 4.81
1165 1183 3.798511 GCGGAGGAAAGGGAGGGG 61.799 72.222 0.00 0.00 0.00 4.79
1166 1184 4.162690 CGCGGAGGAAAGGGAGGG 62.163 72.222 0.00 0.00 0.00 4.30
1167 1185 2.056223 TACGCGGAGGAAAGGGAGG 61.056 63.158 12.47 0.00 0.00 4.30
1168 1186 1.141234 GTACGCGGAGGAAAGGGAG 59.859 63.158 12.47 0.00 0.00 4.30
1169 1187 0.974010 ATGTACGCGGAGGAAAGGGA 60.974 55.000 12.47 0.00 0.00 4.20
1170 1188 0.748450 TATGTACGCGGAGGAAAGGG 59.252 55.000 12.47 0.00 0.00 3.95
1171 1189 1.135527 TGTATGTACGCGGAGGAAAGG 59.864 52.381 12.47 0.00 0.00 3.11
1172 1190 2.572191 TGTATGTACGCGGAGGAAAG 57.428 50.000 12.47 0.00 0.00 2.62
1190 1208 1.865865 AAAGCGGAGGCGTGTATATG 58.134 50.000 0.00 0.00 46.35 1.78
1734 1755 5.209659 AGACTGGACCACTAAATACTAGGG 58.790 45.833 0.00 0.00 0.00 3.53
1738 1759 7.674772 AGAACTAAGACTGGACCACTAAATACT 59.325 37.037 0.00 0.00 0.00 2.12
1739 1760 7.760340 CAGAACTAAGACTGGACCACTAAATAC 59.240 40.741 0.00 0.00 0.00 1.89
1758 1779 4.476297 TCACACCCAGTAGTTCAGAACTA 58.524 43.478 17.71 17.71 42.81 2.24
1784 1805 3.430374 GCCTCTATAAAAGCACCGACTGA 60.430 47.826 0.00 0.00 0.00 3.41
1790 1811 3.118223 AGACTGGCCTCTATAAAAGCACC 60.118 47.826 3.32 0.00 0.00 5.01
1807 1828 2.012673 GAGCATAAACCAGCCAGACTG 58.987 52.381 0.00 0.00 46.77 3.51
1809 1830 1.009829 CGAGCATAAACCAGCCAGAC 58.990 55.000 0.00 0.00 0.00 3.51
1819 1840 8.325421 TCCAAATTTACTGTTACGAGCATAAA 57.675 30.769 0.00 0.00 0.00 1.40
1911 1932 3.381045 TCATAACTAATCTGCCGCTTCG 58.619 45.455 0.00 0.00 0.00 3.79
1983 2004 7.439157 TGCGATAATTAATTTGGATCAGAGG 57.561 36.000 5.91 0.00 0.00 3.69
1984 2005 7.020010 GCTGCGATAATTAATTTGGATCAGAG 58.980 38.462 5.91 3.88 0.00 3.35
1985 2006 6.712095 AGCTGCGATAATTAATTTGGATCAGA 59.288 34.615 5.91 0.00 0.00 3.27
1986 2007 6.906659 AGCTGCGATAATTAATTTGGATCAG 58.093 36.000 5.91 8.81 0.00 2.90
1988 2009 7.138692 AGAGCTGCGATAATTAATTTGGATC 57.861 36.000 5.91 2.95 0.00 3.36
1990 2011 7.497579 TGTTAGAGCTGCGATAATTAATTTGGA 59.502 33.333 5.91 0.00 0.00 3.53
1991 2012 7.639039 TGTTAGAGCTGCGATAATTAATTTGG 58.361 34.615 5.91 0.00 0.00 3.28
1992 2013 9.669353 AATGTTAGAGCTGCGATAATTAATTTG 57.331 29.630 5.91 0.00 0.00 2.32
1993 2014 9.669353 CAATGTTAGAGCTGCGATAATTAATTT 57.331 29.630 5.91 0.00 0.00 1.82
1994 2015 8.840321 ACAATGTTAGAGCTGCGATAATTAATT 58.160 29.630 5.89 5.89 0.00 1.40
1995 2016 8.383318 ACAATGTTAGAGCTGCGATAATTAAT 57.617 30.769 0.00 0.00 0.00 1.40
1996 2017 7.786178 ACAATGTTAGAGCTGCGATAATTAA 57.214 32.000 0.00 0.00 0.00 1.40
1998 2019 6.986817 AGTACAATGTTAGAGCTGCGATAATT 59.013 34.615 0.00 0.00 0.00 1.40
1999 2020 6.516718 AGTACAATGTTAGAGCTGCGATAAT 58.483 36.000 0.00 0.00 0.00 1.28
2002 2023 4.392921 AGTACAATGTTAGAGCTGCGAT 57.607 40.909 0.00 0.00 0.00 4.58
2003 2024 3.868757 AGTACAATGTTAGAGCTGCGA 57.131 42.857 0.00 0.00 0.00 5.10
2004 2025 5.577164 ACTTTAGTACAATGTTAGAGCTGCG 59.423 40.000 0.00 0.00 0.00 5.18
2005 2026 6.969828 ACTTTAGTACAATGTTAGAGCTGC 57.030 37.500 0.00 0.00 0.00 5.25
2006 2027 8.311650 ACAACTTTAGTACAATGTTAGAGCTG 57.688 34.615 0.00 0.00 0.00 4.24
2008 2029 9.420551 AGTACAACTTTAGTACAATGTTAGAGC 57.579 33.333 0.00 0.00 43.24 4.09
2013 2034 9.420551 GCTCTAGTACAACTTTAGTACAATGTT 57.579 33.333 0.00 0.26 43.24 2.71
2014 2035 8.804204 AGCTCTAGTACAACTTTAGTACAATGT 58.196 33.333 6.30 0.00 43.24 2.71
2015 2036 9.077674 CAGCTCTAGTACAACTTTAGTACAATG 57.922 37.037 6.30 0.00 43.24 2.82
2016 2037 7.760340 GCAGCTCTAGTACAACTTTAGTACAAT 59.240 37.037 6.30 0.00 43.24 2.71
2018 2039 6.618811 GCAGCTCTAGTACAACTTTAGTACA 58.381 40.000 6.30 0.00 43.24 2.90
2019 2040 5.738225 CGCAGCTCTAGTACAACTTTAGTAC 59.262 44.000 0.00 0.00 41.59 2.73
2021 2042 4.458295 TCGCAGCTCTAGTACAACTTTAGT 59.542 41.667 0.00 0.00 0.00 2.24
2022 2043 4.794246 GTCGCAGCTCTAGTACAACTTTAG 59.206 45.833 0.00 0.00 0.00 1.85
2023 2044 4.216902 TGTCGCAGCTCTAGTACAACTTTA 59.783 41.667 0.00 0.00 0.00 1.85
2024 2045 3.005472 TGTCGCAGCTCTAGTACAACTTT 59.995 43.478 0.00 0.00 0.00 2.66
2025 2046 2.557056 TGTCGCAGCTCTAGTACAACTT 59.443 45.455 0.00 0.00 0.00 2.66
2026 2047 2.160205 TGTCGCAGCTCTAGTACAACT 58.840 47.619 0.00 0.00 0.00 3.16
2027 2048 2.095161 ACTGTCGCAGCTCTAGTACAAC 60.095 50.000 6.74 0.00 34.37 3.32
2028 2049 2.160205 ACTGTCGCAGCTCTAGTACAA 58.840 47.619 6.74 0.00 34.37 2.41
2029 2050 1.822506 ACTGTCGCAGCTCTAGTACA 58.177 50.000 6.74 0.00 34.37 2.90
2030 2051 2.923605 AACTGTCGCAGCTCTAGTAC 57.076 50.000 6.74 0.00 34.37 2.73
2031 2052 5.578005 AATTAACTGTCGCAGCTCTAGTA 57.422 39.130 6.74 0.00 34.37 1.82
2032 2053 4.457834 AATTAACTGTCGCAGCTCTAGT 57.542 40.909 6.74 0.00 34.37 2.57
2033 2054 4.033358 CCAAATTAACTGTCGCAGCTCTAG 59.967 45.833 6.74 0.00 34.37 2.43
2034 2055 3.932710 CCAAATTAACTGTCGCAGCTCTA 59.067 43.478 6.74 0.00 34.37 2.43
2035 2056 2.744202 CCAAATTAACTGTCGCAGCTCT 59.256 45.455 6.74 0.00 34.37 4.09
2036 2057 2.742053 TCCAAATTAACTGTCGCAGCTC 59.258 45.455 6.74 0.00 34.37 4.09
2037 2058 2.778299 TCCAAATTAACTGTCGCAGCT 58.222 42.857 6.74 0.00 34.37 4.24
2038 2059 3.375299 AGATCCAAATTAACTGTCGCAGC 59.625 43.478 6.74 0.00 34.37 5.25
2039 2060 4.631377 TCAGATCCAAATTAACTGTCGCAG 59.369 41.667 5.47 5.47 37.52 5.18
2040 2061 4.574892 TCAGATCCAAATTAACTGTCGCA 58.425 39.130 0.00 0.00 0.00 5.10
2041 2062 4.034510 CCTCAGATCCAAATTAACTGTCGC 59.965 45.833 0.00 0.00 0.00 5.19
2042 2063 4.572389 CCCTCAGATCCAAATTAACTGTCG 59.428 45.833 0.00 0.00 0.00 4.35
2043 2064 5.745227 TCCCTCAGATCCAAATTAACTGTC 58.255 41.667 0.00 0.00 0.00 3.51
2044 2065 5.251700 ACTCCCTCAGATCCAAATTAACTGT 59.748 40.000 0.00 0.00 0.00 3.55
2045 2066 5.749462 ACTCCCTCAGATCCAAATTAACTG 58.251 41.667 0.00 0.00 0.00 3.16
2046 2067 6.408662 GCTACTCCCTCAGATCCAAATTAACT 60.409 42.308 0.00 0.00 0.00 2.24
2047 2068 5.760743 GCTACTCCCTCAGATCCAAATTAAC 59.239 44.000 0.00 0.00 0.00 2.01
2048 2069 5.667626 AGCTACTCCCTCAGATCCAAATTAA 59.332 40.000 0.00 0.00 0.00 1.40
2049 2070 5.070981 CAGCTACTCCCTCAGATCCAAATTA 59.929 44.000 0.00 0.00 0.00 1.40
2060 2081 1.276421 GCAGAAACAGCTACTCCCTCA 59.724 52.381 0.00 0.00 0.00 3.86
2195 2216 1.907739 TCACCCATGTGAGCTAGCC 59.092 57.895 12.13 3.49 46.40 3.93
2204 2241 2.642311 TGTACATCCACTTCACCCATGT 59.358 45.455 0.00 0.00 0.00 3.21
2235 2273 2.107950 TCATGCGGACTTAAACCTGG 57.892 50.000 0.00 0.00 0.00 4.45
2257 2295 9.533253 CAGAGACAAAACAGGAACAAAAATTAT 57.467 29.630 0.00 0.00 0.00 1.28
2259 2297 7.386059 ACAGAGACAAAACAGGAACAAAAATT 58.614 30.769 0.00 0.00 0.00 1.82
2312 2350 9.811995 CAGTGATCAATTAATCCATGTTTTCAT 57.188 29.630 0.00 0.00 41.78 2.57
2414 2454 2.520069 TGTTATGGACCATTTTGCGGT 58.480 42.857 13.40 0.00 40.30 5.68
2530 2570 4.899502 AGCACTCACAAAAGCTGTATACT 58.100 39.130 4.17 0.00 36.10 2.12
2545 2585 4.406648 TTCAGAGAACTTGAAGCACTCA 57.593 40.909 16.98 0.00 0.00 3.41
2557 2597 6.734104 AATCAACAGCAGTATTCAGAGAAC 57.266 37.500 0.00 0.00 0.00 3.01
2760 2802 1.056660 TCACACCTCCTGGAACTTCC 58.943 55.000 0.20 0.20 36.96 3.46
2920 2962 7.549134 TCTCATTCAGGTCACACATAACATAAC 59.451 37.037 0.00 0.00 0.00 1.89
2921 2963 7.619965 TCTCATTCAGGTCACACATAACATAA 58.380 34.615 0.00 0.00 0.00 1.90
2922 2964 7.181569 TCTCATTCAGGTCACACATAACATA 57.818 36.000 0.00 0.00 0.00 2.29
2923 2965 6.053632 TCTCATTCAGGTCACACATAACAT 57.946 37.500 0.00 0.00 0.00 2.71
2924 2966 5.482163 TCTCATTCAGGTCACACATAACA 57.518 39.130 0.00 0.00 0.00 2.41
2925 2967 6.992063 ATTCTCATTCAGGTCACACATAAC 57.008 37.500 0.00 0.00 0.00 1.89
3020 3062 8.340618 ACAATGTGTGCACTCTTAATTCTTAT 57.659 30.769 19.41 0.00 0.00 1.73
3026 3068 9.265901 GAGATATACAATGTGTGCACTCTTAAT 57.734 33.333 19.41 9.59 0.00 1.40
3099 3146 4.210724 TCGGGTAATGGGTCAACTAAAG 57.789 45.455 0.00 0.00 0.00 1.85
3109 3156 1.134098 AACTGAGCATCGGGTAATGGG 60.134 52.381 0.00 0.00 41.80 4.00
3180 3227 6.115446 TCGCATTCTGACAATAGGAGAAAAT 58.885 36.000 0.00 0.00 29.78 1.82
3185 3232 6.450545 TCTAATCGCATTCTGACAATAGGAG 58.549 40.000 0.00 0.00 0.00 3.69
3188 3235 7.598118 AGTCATCTAATCGCATTCTGACAATAG 59.402 37.037 0.00 0.00 35.22 1.73
3189 3236 7.436933 AGTCATCTAATCGCATTCTGACAATA 58.563 34.615 0.00 0.00 35.22 1.90
3241 3288 5.339008 TTTACAAGACATCAGATAGCGGT 57.661 39.130 0.00 0.00 0.00 5.68
3337 3384 4.818534 AATGTATAAATGCTGGAGTGCG 57.181 40.909 0.00 0.00 35.36 5.34
3658 3706 2.329614 CCCCCGCTGTAACCAAACG 61.330 63.158 0.00 0.00 0.00 3.60
3886 3945 3.008375 TCTGGACAGAAATCACTTCCCTG 59.992 47.826 0.00 0.00 34.21 4.45
3958 4018 2.806244 GCTACGAGCAGAAGAACCAAAA 59.194 45.455 0.00 0.00 41.89 2.44
4161 4230 0.321653 AGTAACAAGGAAGCTGGCCG 60.322 55.000 0.00 0.00 0.00 6.13
4168 4237 3.753797 GGAGAGGCAAAGTAACAAGGAAG 59.246 47.826 0.00 0.00 0.00 3.46
4171 4240 3.140325 TGGAGAGGCAAAGTAACAAGG 57.860 47.619 0.00 0.00 0.00 3.61
4182 4251 4.671831 TGACCATTAAAAATGGAGAGGCA 58.328 39.130 22.29 10.59 41.64 4.75
4184 4253 7.123247 AGTTCATGACCATTAAAAATGGAGAGG 59.877 37.037 22.29 11.21 41.64 3.69
4187 4256 8.408601 CCTAGTTCATGACCATTAAAAATGGAG 58.591 37.037 22.29 10.69 41.64 3.86
4218 4287 1.144093 CACCCCTACCCACTTTCAACA 59.856 52.381 0.00 0.00 0.00 3.33
4255 4328 2.270352 ATTGCGGAGTGGTTGAAGAA 57.730 45.000 0.00 0.00 0.00 2.52
4256 4329 2.301870 AGTATTGCGGAGTGGTTGAAGA 59.698 45.455 0.00 0.00 0.00 2.87
4257 4330 2.699954 AGTATTGCGGAGTGGTTGAAG 58.300 47.619 0.00 0.00 0.00 3.02
4258 4331 2.851263 AGTATTGCGGAGTGGTTGAA 57.149 45.000 0.00 0.00 0.00 2.69
4259 4332 3.093814 TCTAGTATTGCGGAGTGGTTGA 58.906 45.455 0.00 0.00 0.00 3.18
4260 4333 3.448686 CTCTAGTATTGCGGAGTGGTTG 58.551 50.000 0.00 0.00 0.00 3.77
4261 4334 2.431057 CCTCTAGTATTGCGGAGTGGTT 59.569 50.000 0.00 0.00 0.00 3.67
4278 4351 2.835431 CGATCCAGACGGGCCTCT 60.835 66.667 0.84 0.24 36.21 3.69
4344 4426 7.873719 TTTGTCTTAACCAAATGAGTTGAGA 57.126 32.000 0.00 0.00 39.87 3.27
4385 4467 7.573096 CGTCAGTTGCAGTTCCTTGTTTATTAT 60.573 37.037 0.00 0.00 0.00 1.28
4411 4493 1.070776 GTTGTGGAAAAGCGACGAGAC 60.071 52.381 0.00 0.00 0.00 3.36
4427 4509 2.249309 ATAGGTCCTTCGGAGGTTGT 57.751 50.000 10.32 0.00 43.97 3.32
4436 4518 5.086104 TCTGCACTTTGTATAGGTCCTTC 57.914 43.478 0.00 0.00 0.00 3.46
4452 4534 6.854892 GCTGTCATATATGAACATTTCTGCAC 59.145 38.462 16.97 1.90 38.75 4.57


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.